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https://www.readbyqxmd.com/read/28448065/construction-of-a-map-based-reference-genome-sequence-for-barley-hordeum-vulgare-l
#1
Sebastian Beier, Axel Himmelbach, Christian Colmsee, Xiao-Qi Zhang, Roberto A Barrero, Qisen Zhang, Lin Li, Micha Bayer, Daniel Bolser, Stefan Taudien, Marco Groth, Marius Felder, Alex Hastie, Hana Šimková, Helena Staňková, Jan Vrána, Saki Chan, María Muñoz-Amatriaín, Rachid Ounit, Steve Wanamaker, Thomas Schmutzer, Lala Aliyeva-Schnorr, Stefano Grasso, Jaakko Tanskanen, Dharanya Sampath, Darren Heavens, Sujie Cao, Brett Chapman, Fei Dai, Yong Han, Hua Li, Xuan Li, Chongyun Lin, John K McCooke, Cong Tan, Songbo Wang, Shuya Yin, Gaofeng Zhou, Jesse A Poland, Matthew I Bellgard, Andreas Houben, Jaroslav Doležel, Sarah Ayling, Stefano Lonardi, Peter Langridge, Gary J Muehlbauer, Paul Kersey, Matthew D Clark, Mario Caccamo, Alan H Schulman, Matthias Platzer, Timothy J Close, Mats Hansson, Guoping Zhang, Ilka Braumann, Chengdao Li, Robbie Waugh, Uwe Scholz, Nils Stein, Martin Mascher
Barley (Hordeum vulgare L.) is a cereal grass mainly used as animal fodder and raw material for the malting industry. The map-based reference genome sequence of barley cv. 'Morex' was constructed by the International Barley Genome Sequencing Consortium (IBSC) using hierarchical shotgun sequencing. Here, we report the experimental and computational procedures to (i) sequence and assemble more than 80,000 bacterial artificial chromosome (BAC) clones along the minimum tiling path of a genome-wide physical map, (ii) find and validate overlaps between adjacent BACs, (iii) construct 4,265 non-redundant sequence scaffolds representing clusters of overlapping BACs, and (iv) order and orient these BAC clusters along the seven barley chromosomes using positional information provided by dense genetic maps, an optical map and chromosome conformation capture sequencing (Hi-C)...
April 27, 2017: Scientific Data
https://www.readbyqxmd.com/read/28447930/a-novel-and-simple-method-for-tracheal-intubation-in-a-swine-model-preparing-for-the-era-of-xenotransplantation
#2
Hyub Huh, Hyong Hwan Lim, Ji Yeong Kim, Hye Won Shin, Hae Ja Lim, Suk Min Yoon, Seung Zhoo Yoon, Hye Won Lee
OBJECTIVES: Organ transplant in humans is an established therapy for a variety of end-stage organ diseases. However, due to organ shortages and lack of donors, the need for xenotransplant has gradually increased. Xenotransplantation has great potential to solve many of the problems facing organ transplantation. Pigs are being developed as xenogeneic organ donors for use in humans. In this study, we propose a novel and simple method for tracheal intubation in a swine model using neuromuscular blocking agents and laryngeal mask airway...
April 27, 2017: Experimental and Clinical Transplantation
https://www.readbyqxmd.com/read/28447635/a-chromosome-conformation-capture-ordered-sequence-of-the-barley-genome
#3
Martin Mascher, Heidrun Gundlach, Axel Himmelbach, Sebastian Beier, Sven O Twardziok, Thomas Wicker, Volodymyr Radchuk, Christoph Dockter, Pete E Hedley, Joanne Russell, Micha Bayer, Luke Ramsay, Hui Liu, Georg Haberer, Xiao-Qi Zhang, Qisen Zhang, Roberto A Barrero, Lin Li, Stefan Taudien, Marco Groth, Marius Felder, Alex Hastie, Hana Šimková, Helena Staňková, Jan Vrána, Saki Chan, María Muñoz-Amatriaín, Rachid Ounit, Steve Wanamaker, Daniel Bolser, Christian Colmsee, Thomas Schmutzer, Lala Aliyeva-Schnorr, Stefano Grasso, Jaakko Tanskanen, Anna Chailyan, Dharanya Sampath, Darren Heavens, Leah Clissold, Sujie Cao, Brett Chapman, Fei Dai, Yong Han, Hua Li, Xuan Li, Chongyun Lin, John K McCooke, Cong Tan, Penghao Wang, Songbo Wang, Shuya Yin, Gaofeng Zhou, Jesse A Poland, Matthew I Bellgard, Ljudmilla Borisjuk, Andreas Houben, Jaroslav Doležel, Sarah Ayling, Stefano Lonardi, Paul Kersey, Peter Langridge, Gary J Muehlbauer, Matthew D Clark, Mario Caccamo, Alan H Schulman, Klaus F X Mayer, Matthias Platzer, Timothy J Close, Uwe Scholz, Mats Hansson, Guoping Zhang, Ilka Braumann, Manuel Spannagl, Chengdao Li, Robbie Waugh, Nils Stein
Cereal grasses of the Triticeae tribe have been the major food source in temperate regions since the dawn of agriculture. Their large genomes are characterized by a high content of repetitive elements and large pericentromeric regions that are virtually devoid of meiotic recombination. Here we present a high-quality reference genome assembly for barley (Hordeum vulgare L.). We use chromosome conformation capture mapping to derive the linear order of sequences across the pericentromeric space and to investigate the spatial organization of chromatin in the nucleus at megabase resolution...
April 26, 2017: Nature
https://www.readbyqxmd.com/read/28445786/metallo-%C3%AE-lactamase-inhibitors-by-bioisosteric-replacement-preparation-activity-and-binding
#4
Susann Skagseth, Sundus Akhter, Marianne H Paulsen, Zeeshan Muhammad, Silje Lauksund, Ørjan Samuelsen, Hanna-Kirsti S Leiros, Annette Bayer
Bacterial resistance is compromising the use of β-lactam antibiotics including carbapenems. The main resistance mechanism against β-lactams is hydrolysis of the β-lactam ring mediated by serine- or metallo-β-lactamases (MBLs). Although several inhibitors of MBLs have been reported, none has been developed into a clinically useful inhibitor. Mercaptocarboxylic acids are among the most prominent scaffolds reported as MBL inhibitors. In this study, the carboxylate group of mercaptocarboxylic acids was replaced with bioisosteric groups like phosphonate esters, phosphonic acids and NH-tetrazoles...
April 14, 2017: European Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/28442765/the-gpr139-reference-agonists-1a-and-7c-and-tryptophan-and-phenylalanine-share-a-common-binding-site
#5
Anne Cathrine Nøhr, Willem Jespers, Mohamed A Shehata, Leonard Floryan, Vignir Isberg, Kirsten Bayer Andersen, Johan Åqvist, Hugo Gutiérrez-de-Terán, Hans Bräuner-Osborne, David E Gloriam
GPR139 is an orphan G protein-coupled receptor expressed in the brain, in particular in the habenula, hypothalamus and striatum. It has therefore been suggested that GPR139 is a possible target for metabolic disorders and Parkinson's disease. Several surrogate agonist series have been published for GPR139. Two series published by Shi et al. and Dvorak et al. included agonists 1a and 7c respectively, with potencies in the ten-nanomolar range. Furthermore, Isberg et al. and Liu et al. have previously shown that tryptophan (Trp) and phenylalanine (Phe) can activate GPR139 in the hundred-micromolar range...
April 25, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28436172/indaziflam-a-new-cellulose-biosynthesis-inhibiting-herbicide-provides-long-term-control-of-invasive-winter-annual-grasses
#6
Derek J Sebastian, Margaret B Fleming, Eric L Patterson, James R Sebastian, Scott J Nissen
BACKGROUND: Indaziflam (Esplanade™, Bayer CropScience) is a cellulose biosynthesis inhibiting (CBI) herbicide that is a unique mode of action for resistance management and has broad spectrum activity at low application rates. This research further explores indaziflam's activity on monocotyledons and dicotyledons, and evaluates indaziflam's potential for restoring non-crop sites infested with invasive winter annual grasses. RESULTS: Treated Arabidopsis, downy brome, feral rye, and kochia were all susceptible to indaziflam in a dose-dependent manner...
April 24, 2017: Pest Management Science
https://www.readbyqxmd.com/read/28434692/immune-hyperreactivity-of-a%C3%AE-plaque-associated-microglia-in-alzheimer-s-disease
#7
Zhuoran Yin, Divya Raj, Nasrin Saiepour, Debby Van Dam, Nieske Brouwer, Inge R Holtman, Bart J L Eggen, Thomas Möller, Joseph A Tamm, Aicha Abdourahman, Elly M Hol, Willem Kamphuis, Thomas A Bayer, Peter P De Deyn, Erik Boddeke
Alzheimer's disease (AD) is strongly associated with microglia-induced neuroinflammation. Particularly, Aβ plaque-associated microglia take on an "activated" morphology. However, the function and phenotype of these Aβ plaque-associated microglia are not well understood. We show hyperreactivity of Aβ plaque-associated microglia upon systemic inflammation in transgenic AD mouse models (i.e., 5XFAD and APP23). Gene expression profiling of Aβ plaque-associated microglia (major histocompatibility complex II(+) microglia) isolated from 5XFAD mice revealed a proinflammatory phenotype...
March 27, 2017: Neurobiology of Aging
https://www.readbyqxmd.com/read/28433091/internet-delivered-parenting-program-for-prevention-and-early-intervention-of-anxiety-problems-in-young-children-randomized-controlled-trial
#8
Amy J Morgan, Ronald M Rapee, Agus Salim, Nahal Goharpey, Elli Tamir, Lauren F McLellan, Jordana K Bayer
OBJECTIVE: The Cool Little Kids parenting group program is an effective intervention for preventing anxiety disorders in young children who are at risk because of inhibited temperament. The program has six group sessions delivered by trained psychologists to parents of 3- to 6-year-old children. An online adaptation (Cool Little Kids Online) has been developed to overcome barriers to its wide dissemination in the community. This study tested the efficacy of Cool Little Kids Online in a randomized controlled trial...
May 2017: Journal of the American Academy of Child and Adolescent Psychiatry
https://www.readbyqxmd.com/read/28427834/doped-silica-fibre-thermoluminescence-measurements-of-radiation-dose-in-the-use-of-223-ra
#9
Bradley, S F Abdul Sani, A S Siti Shafiqah, S M Collins, R P Hugtenburg, H A Abdul Rashid, Nurul Najua Zulkepely, M J Maah
Using tailor-made sub-mm dimension doped-silica fibres, thermoluminescent dosimetric studies have been performed for α-emitting sources of (223)RaCl2 (the basis of the Bayer Healthcare product Xofigo®). The use of (223)RaCl2 in the palliative treatment of bone metastases resulting from late-stage castration-resistant prostate cancer focuses on its favourable uptake in metabolically active bone metastases. Such treatment benefits from the high linear energy transfer (LET) and associated short path length (<100µm) of the α-particles emitted by (223)Ra and its decay progeny...
April 14, 2017: Applied Radiation and Isotopes
https://www.readbyqxmd.com/read/28419726/chemotaxonomic-characterization-of-the-thaumarchaeal-lipidome
#10
Felix J Elling, Martin Könneke, Graeme W Nicol, Michaela Stieglmeier, Barbara Bayer, Eva Spieck, José R de la Torre, Kevin W Becker, Michael Thomm, James I Prosser, Gerhard J Herndl, Christa Schleper, Kai-Uwe Hinrichs
Thaumarchaeota are globally distributed and abundant microorganisms occurring in diverse habitats and thus represent a major source of archaeal lipids. The scope of lipids as taxonomic markers in microbial ecological studies is limited by the scarcity of comparative data on the membrane lipid composition of cultivated representatives, including the phylum Thaumarchaeota. Here, we comprehensively describe the core and intact polar lipid (IPL) inventory of ten ammonia-oxidizing thaumarchaeal cultures representing all four characterized phylogenetic clades...
April 17, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28417363/carbohydrate-depolymerization-by-intricate-cellulosomal-systems
#11
Johanna Stern, Lior Artzi, Sarah Moraïs, Carlos M G A Fontes, Edward A Bayer
Cellulosomes are multi-enzymatic nanomachines that have been fine-tuned through evolution to efficiently deconstruct plant biomass. Integration of cellulosomal components occurs via highly ordered protein-protein interactions between the various enzyme-borne dockerin modules and the multiple copies of the cohesin modules located on the scaffoldin subunit. Recently, designer cellulosome technology has been established to provide insights into the architectural role of catalytic (enzymatic) and structural (scaffoldin) cellulosomal constituents for the efficient degradation of plant cell wall polysaccharides...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28412420/stress-perfusion-cmr-in-patients-with-known-and-suspected-cad-prognostic-value-and-optimal-ischemic-threshold-for-revascularization
#12
Gabriella Vincenti, Pier Giorgio Masci, Pierre Monney, Tobias Rutz, Sarah Hugelshofer, Mirdita Gaxherri, Olivier Muller, Juan F Iglesias, Eric Eeckhout, Valentina Lorenzoni, Cyril Pellaton, Christophe Sierro, Juerg Schwitter
OBJECTIVES: This study sought to determine the ischemia threshold and additional prognostic factors that identify patients for safe deferral from revascularizations in a large cohort of all-comer patients with known or suspected coronary artery disease (CAD). BACKGROUND: Stress-perfusion cardiac magnetic resonance (CMR) is increasingly used in daily practice for ischemia detection. However, there is insufficient evidence about the ischemia burden that identifies patients who benefit from revascularization versus those with a good prognosis who receive drugs only...
April 10, 2017: JACC. Cardiovascular Imaging
https://www.readbyqxmd.com/read/28410557/introducing-overlapping-grain-boundaries-in-chemical-vapor-deposited-hexagonal-boron-nitride-monolayer-films
#13
Bernhard C Bayer, Sabina Caneva, Timothy J Pennycook, Jani Kotakoski, Clemens Mangler, Stephan Hofmann, Jannik C Meyer
We demonstrate the growth of overlapping grain boundaries in continuous, polycrystalline hexagonal boron nitride (h-BN) monolayer films via scalable catalytic chemical vapor deposition. Unlike the commonly reported atomically stitched grain boundaries, these overlapping grain boundaries do not consist of defect lines within the monolayer films but are composed of self-sealing bilayer regions of limited width. We characterize this overlapping h-BN grain boundary structure in detail by complementary (scanning) transmission electron microscopy techniques and propose a catalytic growth mechanism linked to the subsurface/bulk of the process catalyst and its boron and nitrogen solubilities...
April 24, 2017: ACS Nano
https://www.readbyqxmd.com/read/28409974/picosecond-control-of-quantum-dot-laser-emission-by-coherent-phonons
#14
T Czerniuk, D Wigger, A V Akimov, C Schneider, M Kamp, S Höfling, D R Yakovlev, T Kuhn, D E Reiter, M Bayer
A picosecond acoustic pulse can be used to control the lasing emission from semiconductor nanostructures by shifting their electronic transitions. When the active medium, here an ensemble of (In,Ga)As quantum dots, is shifted into or out of resonance with the cavity mode, a large enhancement or suppression of the lasing emission can dynamically be achieved. Most interesting, even in the case when gain medium and cavity mode are in resonance, we observe an enhancement of the lasing due to shaking by coherent phonons...
March 31, 2017: Physical Review Letters
https://www.readbyqxmd.com/read/28403535/assembly-and-comparison-of-two-closely-related-brassica-napus-genomes
#15
Philipp E Bayer, Bhavna Hurgobin, Agnieszka A Golicz, Chon-Kit Kenneth Chan, Yuxuan Yuan, HueyTyng Lee, Michael Renton, Jinling Meng, Ruiyuan Li, Yan Long, Jun Zou, Ian Bancroft, Boulos Chalhoub, Graham J King, Jacqueline Batley, David Edwards
As an increasing number of plant genome sequences become available, it is clear that gene content varies between individuals, and the challenge arises to predict the gene content of a species. However, genome comparison is often confounded by variation in assembly and annotation. Differentiating between true gene absence and variation in assembly or annotation is essential for the accurate identification of conserved and variable genes in a species. Here we present the de novo assembly of the B. napus cultivar Tapidor and comparison with an improved assembly of the B...
April 12, 2017: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/28402125/assessment-of-radiation-dose-from-abdominal-quantitative-ct-with-short-scan-length
#16
Xinhua Li, Kai Yang, Matthew C DeLorenzo, Bob Liu
OBJECTIVE: To assess radiation dose for patients who received abdominal quantitative CT and to compare the midpoint dose [DL(0)] at the center of 1-cm scan length with the volume CT dose index (CTDIvol). Although the size-specific dose estimate (SSDE) proposed in AAPM Report No. 204 is not applicable for short length scans, commercial dose monitoring software, such as Radimetrics Enterprise Platform (Bayer HealthCare, Whippany, NJ), reports SSDE for all scans. SSDE was herein compared with DL(0)...
April 12, 2017: British Journal of Radiology
https://www.readbyqxmd.com/read/28402123/iron-isotope-fractionation-during-fe-ii-oxidation-mediated-by-the-oxygen-producing-marine-cyanobacterium-synechococcus-pcc-7002
#17
E D Swanner, T Bayer, W Wu, L Hao, M Obst, A Sundman, J M Byrne, F M Michel, I C Kleinhanns, A Kappler, R Schoenberg
In this study, we couple iron isotope analysis to microscopic and mineralogical investigation of iron speciation during circumneutral Fe(II) oxidation and Fe(III) precipitation with photosynthetically produced oxygen. In the presence of the cyanobacterium Synechococcus PCC 7002, aqueous Fe(II) (Fe(II)aq) is oxidized and precipitated as amorphous Fe(III) oxyhydroxide minerals (iron precipitates, Feppt), with distinct isotopic fractionation (ε(56)Fe) values determined from fitting the δ(56)Fe(II)aq (1.79‰ and 2...
April 21, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28401760/healable-cotton-graphene-nanocomposite-conductor-for-wearable-electronics
#18
Pietro Cataldi, Luca Ceseracciu, Athanassia Athanassiou, Ilker S Bayer
Electrically conductive materials based on cotton have important implications for wearable electronics. We have developed flexible and conductive cotton fabrics (∼10 Ω/sq) by impregnation with graphene and thermoplastic polyurethane-based dispersions. Nanocomposite fabrics display remarkable resilience against weight-pressed severe folding as well as laundry cycles. Folding induced microcracks can be healed easily by hot-pressing, restoring initial electrical conductivity. Impregnated cotton fabric conductors demonstrate better mechanical properties compared to pure cotton and thermoplastic polyurethane maintaining breathability...
April 13, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28395750/efficacy-and-safety-of-a-new-spot-on-formulation-of-selamectin-plus-sarolaner-in-the-treatment-of-naturally-occurring-flea-and-tick-infestations-in-cats-presented-as-veterinary-patients-in-europe
#19
RANDOMIZED CONTROLLED TRIAL
Thomas Geurden, Csilla Becskei, Robert Farkas, Dan Lin, Douglas Rugg
Two randomised, blinded, multi-centre field studies were conducted in Europe (Germany, Italy, France, Hungary) to demonstrate the efficacy and safety of three monthly applications of a new spot-on formulation of selamectin plus sarolaner (Stronghold(®) Plus, Zoetis) against natural flea or tick infestations in cats presented as veterinary patients. The spot-on formulation was administered at the commercial dose range of 6.0-12.0mg selamectin and 1.0-2.0mg sarolaner per kg bodyweight. In the flea study, the improvement in clinical signs associated with flea allergy dermatitis (FAD) was also monitored...
April 2017: Veterinary Parasitology
https://www.readbyqxmd.com/read/28393632/increasing-response-rates-to-follow-up-questionnaires-in-health-intervention-research-randomized-controlled-trial-of-a-gift-card-prize-incentive
#20
Amy J Morgan, Ronald M Rapee, Jordana K Bayer
Background/aims Achieving a high response rate to follow-up questionnaires in randomized controlled trials of interventions is important for study validity. Few studies have tested the value of incentives in increasing response rates to online questionnaires in clinical trials of health interventions. This study evaluated the effect of a gift card prize-draw incentive on response rates to follow-up questionnaires within a trial of an online health intervention. Method The study was embedded in a host randomized controlled trial of an online parenting program for child anxiety...
April 1, 2017: Clinical Trials: Journal of the Society for Clinical Trials
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